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@OpenOmics

OpenOmics

Open Bioinformatics Research
README.md

Welcome to OpenOmics

GIF

We are a diverse group of Bioinformatics scientists, developers, and data scientists on a mission to push science forward.

We believe in open, reproducible, collaborative scientific research, and the strength of community led efforts. We recognize that together as a group we build strong. OpenOmics serves as a place to connect and engage with other community members, share ideas, and build pipelines & tools that enable the greater scientific community.

If you are a new member, welcome! Before getting started, please take a moment to read through our code of conduct. If you have any questions, please feel free to start a discussion.

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  1. genome-seek genome-seek Public

    Clinical Whole Genome and Exome Sequencing Pipeline

    Python 23 10

  2. RNA-seek RNA-seek Public

    Forked from skchronicles/RNA-seek

    A comprehensive quality-control and quantification RNA-seq pipeline

    Python 4 2

  3. modr modr Public

    An awesome Oxford Nanopore Pipeline for direct RNA-sequencing

    Python 5 1

  4. metavirs metavirs Public

    Viral Metagenomics Assembly and Annotation Pipeline

    Python 5 1

  5. cell-seek cell-seek Public

    One single-cell pipeline to rule them all, one pipeline to find them, one pipeline to unify them all, and with the data bind them.

    Python 1 1

  6. chrom-seek chrom-seek Public

    An awesome set of epigenetic pipelines for bulk cfChip-seq, ChIP-seq, and ATAC-seq

    Python 5 2

Repositories

Showing 10 of 48 repositories
  • chrom-seek Public

    An awesome set of epigenetic pipelines for bulk cfChip-seq, ChIP-seq, and ATAC-seq

    OpenOmics/chrom-seek’s past year of commit activity
    Python 5 MIT 2 8 2 Updated Jul 30, 2025
  • methyl-seek Public

    Bisulphite-sequencing DNA methylation pipeline

    OpenOmics/methyl-seek’s past year of commit activity
    Python 7 MIT 3 2 1 Updated Jul 23, 2025
  • genome-seek Public

    Clinical Whole Genome and Exome Sequencing Pipeline

    OpenOmics/genome-seek’s past year of commit activity
    Python 23 MIT 10 5 0 Updated Jul 22, 2025
  • cell-seek Public

    One single-cell pipeline to rule them all, one pipeline to find them, one pipeline to unify them all, and with the data bind them.

    OpenOmics/cell-seek’s past year of commit activity
    Python 1 MIT 1 0 0 Updated Jul 22, 2025
  • ervx Public

    Endogenous Retrovirus Expression Pipeline for Human, Mouse, and Macaque for use with bulk RNA-seq

    OpenOmics/ervx’s past year of commit activity
    Python 1 MIT 1 2 0 Updated Jul 17, 2025
  • scribble Public

    Scripts/code-snippets, somewhere in-between bioinformatics and data science, and oneliners

    OpenOmics/scribble’s past year of commit activity
    Python 4 MIT 3 0 0 Updated Jul 14, 2025
  • metamorph Public

    Metagenomics and Metatranscriptomics pipeline

    OpenOmics/metamorph’s past year of commit activity
    Python 5 MIT 1 4 0 Updated Jul 14, 2025
  • space-seek Public

    Spatial-sequencing: The final frontier. These are the voyages of the 10x Visium pipeline, space-seek.

    OpenOmics/space-seek’s past year of commit activity
    Python 1 MIT 0 0 0 Updated Jul 11, 2025
  • RNA-seek Public Forked from skchronicles/RNA-seek

    A comprehensive quality-control and quantification RNA-seq pipeline

    OpenOmics/RNA-seek’s past year of commit activity
    Python 4 MIT 13 0 0 Updated Jul 9, 2025
  • leafworker Public

    An awesome snakemake pipeline to run leafcutter and IsoformSwitchAnalyzeR.

    OpenOmics/leafworker’s past year of commit activity
    Python 1 MIT 0 3 0 Updated Jun 26, 2025
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